Nuno A. Fonseca

Orcid: 0000-0003-4832-578X

Affiliations:
  • University of Porto, Portugal


According to our database1, Nuno A. Fonseca authored at least 47 papers between 1998 and 2021.

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Bibliography

2021
A Study on Burrows-Wheeler Aligner's Performance Optimization for Ancient DNA Mapping.
Proceedings of the Practical Applications of Computational Biology & Bioinformatics, 2021

2020
Analyses of non-coding somatic drivers in 2,658 cancer whole genomes.
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Nat., 2020

Genomic basis for RNA alterations in cancer.
Nat., 2020

Expression Atlas update: from tissues to single cells.
Nucleic Acids Res., 2020

2019
ArrayExpress update - from bulk to single-cell expression data.
Nucleic Acids Res., 2019

2018
Gramene 2018: unifying comparative genomics and pathway resources for plant research.
Nucleic Acids Res., 2018

Expression Atlas: gene and protein expression across multiple studies and organisms.
Nucleic Acids Res., 2018

2017
The RNASeq-er API - a gateway to systematically updated analysis of public RNA-seq data.
Bioinform., 2017

QmihR: Pipeline for Quantification of Microbiome in Human RNA-seq.
Proceedings of the 11th International Conference on Practical Applications of Computational Biology & Bioinformatics, 2017

2016
Parallel Algorithms for Multirelational Data Mining: Application to Life Science Problems.
Proceedings of the Resource Management for Big Data Platforms, 2016

Gramene 2016: comparative plant genomics and pathway resources.
Nucleic Acids Res., 2016

Expression Atlas update - an integrated database of gene and protein expression in humans, animals and plants.
Nucleic Acids Res., 2016

2015
Predicting malignancy from mammography findings and image-guided core biopsies.
Int. J. Data Min. Bioinform., 2015

2014
Expression Atlas update - a database of gene and transcript expression from microarray- and sequencing-based functional genomics experiments.
Nucleic Acids Res., 2014

2013
Improving the performance of Transposable Elements detection tools.
J. Integr. Bioinform., 2013

Boosting the Detection of Transposable Elements Using Machine Learning.
Proceedings of the 7th International Conference on Practical Applications of Computational Biology & Bioinformatics, 2013

AND Parallelism for ILP: The APIS System.
Proceedings of the Inductive Logic Programming - 23rd International Conference, 2013

2012
ADOPS - Automatic Detection Of Positively Selected Sites.
J. Integr. Bioinform., 2012

Predicting the secondary structure of proteins using machine learning algorithms.
Int. J. Data Min. Bioinform., 2012

Tools for mapping high-throughput sequencing data.
Bioinform., 2012

On the Development of a Pipeline for the Automatic Detection of Positively Selected Sites.
Proceedings of the 6th International Conference on Practical Applications of Computational Biology & Bioinformatics, 2012

2011
A Relational Learning Approach to Structure-Activity Relationships in Drug Design Toxicity Studies.
J. Integr. Bioinform., 2011

Assessing the Effect of 2D Fingerprint Filtering on ILP-Based Structure-Activity Relationships Toxicity Studies in Drug Design.
Proceedings of the 5th International Conference on Practical Applications of Computational Biology & Bioinformatics, 2011

Conceptual Clustering of Multi-Relational Data.
Proceedings of the Inductive Logic Programming - 21st International Conference, 2011

Studying the Relevance of Breast Imaging Features.
Proceedings of the HEALTHINF 2011, 2011

Predicting Malignancy from Mammography Findings and Surgical Biopsies.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2011

2010
Predicting the Start of Protein <i>alpha</i>-Helices Using Machine Learning Algorithms.
Proceedings of the Advances in Bioinformatics, 2010

Interactive Discriminative Mining of Chemical Fragments.
Proceedings of the Inductive Logic Programming - 20th International Conference, 2010

2009
Improving the efficiency of inductive logic programming systems.
Softw. Pract. Exp., 2009

Parallel ILP for distributed-memory architectures.
Mach. Learn., 2009

Comparative Study of Classification Algorithms Using Molecular Descriptors in Toxicological DataBases.
Proceedings of the Advances in Bioinformatics and Computational Biology, 2009

Visually Guiding and Controlling the Search While Mining Chemical Structures.
Proceedings of the Distributed Computing, 2009

Partitional Clustering of Protein Sequences - An Inductive Logic Programming Approach.
Proceedings of the Distributed Computing, 2009

2008
Compile the Hypothesis Space: Do it Once, Use it Often.
Fundam. Informaticae, 2008

k-RNN: k-relational nearest neighbour algorithm.
Proceedings of the 2008 ACM Symposium on Applied Computing (SAC), 2008

BIORED - A Genetic Algorithm for Pattern Detection in Biosequences.
Proceedings of the 2nd International Workshop on Practical Applications of Computational Biology and Bioinformatics, 2008

LogCHEM: Interactive Discriminative Mining of Chemical Structure.
Proceedings of the 2008 IEEE International Conference on Bioinformatics and Biomedicine, 2008

2007
ILP : - Just Trie It.
Proceedings of the Inductive Logic Programming, 17th International Conference, 2007

2006
April - An Inductive Logic Programming System.
Proceedings of the Logics in Artificial Intelligence, 10th European Conference, 2006

Efficient and Scalable Induction of Logic Programs Using a Deductive Database System.
Proceedings of the Inductive Logic Programming, 16th International Conference, 2006

2005
Strategies to Parallelize ILP Systems.
Proceedings of the Inductive Logic Programming, 15th International Conference, 2005

On Applying Tabling to Inductive Logic Programming.
Proceedings of the Machine Learning: ECML 2005, 2005

A pipelined data-parallel algorithm for ILP.
Proceedings of the 2005 IEEE International Conference on Cluster Computing (CLUSTER 2005), September 26, 2005

2004
On Avoiding Redundancy in Inductive Logic Programming.
Proceedings of the Inductive Logic Programming, 14th International Conference, 2004

2003
Efficient Data Structures for Inductive Logic Programming.
Proceedings of the Inductive Logic Programming: 13th International Conference, 2003

Experimental Evaluation of a Caching Technique for ILP.
Proceedings of the Progress in Artificial Intelligence, 2003

1998
VisAll: A Universal Tool to Visualise Parallel Execution of Logic Programs.
Proceedings of the 1998 Joint International Conference and Symposium on Logic Programming, 1998


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